Typing tool
|
Complete norovirus genomes
KY887606 | GII.3 | ||
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GII.P16 |
ORF1: 1..5098 ORF2: 5079..6725 ORF3: 6725..7489LOCUS KY887606 7549 bp RNA linear VRL 15-JUL-2017 DEFINITION Norovirus GII isolate Hu/UK/2016/GII.P16_GII.3/NOR-2598, partial genome. ACCESSION KY887606 VERSION KY887606.1 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 7549) AUTHORS Ruis,C., Roy,S., Brown,J.R., Allen,D.J., Goldstein,R.A. and Breuer,J. TITLE The emerging GII.P16-GII.4 Sydney 2012 norovirus lineage is circulating worldwide, arose by late-2014 and contains polymerase changes that may increase virus transmission JOURNAL PLoS ONE 12 (6), E0179572 (2017) PUBMED 28662035 REMARK Publication Status: Online-Only REFERENCE 2 (bases 1 to 7549) AUTHORS Ruis,C., Roy,S., Brown,J.R., Allen,D.J., Goldstein,R.A. and Breuer,J. TITLE Direct Submission JOURNAL Submitted (03-APR-2017) Infection and Immunity, University College London, Gower Street, London WC1E6BT, United Kingdom COMMENT ##Assembly-Data-START## Assembly Method :: CLC Genomics Workbench v. 8.5 Sequencing Technology :: Illumina ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..7549 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/UK/2016/GII.P16_GII.3/NOR-2598" /host="Homo sapiens" /db_xref="taxon:122929" /country="United Kingdom: London" /collection_date="02-Apr-2016" /note="genotype: GII.P16_GII.3" CDS <1..5098 /codon_start=2 /product="non-structural polyprotein" /protein_id="ASK12158.1" /translation="KMASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPK QPAPRDEPQKPLRPPTPELVKKIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQP DVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAI SMARVELAPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLND SWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIG KIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPE DLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFF PKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLS TKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLARE VARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADT CPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVE KAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIAR ASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKT MEELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHL KHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEA PKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGK YSIEEYLQDRDKYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVT GSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPS LFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGT VATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDC GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGP GGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPR GKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWN GETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLS TMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDS TQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTS QWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKE YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPN HEDPSETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEP MFRWMRFSDLSTWEGDRNLAPNFVNEDGVE" CDS 5079..6725 /codon_start=1 /product="VP1" /protein_id="ASK12159.1" /translation="MKMASNDAAPSNDGAAGLVPEINNEAMALEPVAGAAIAAPLTGQ QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT QLLPSQICAFRGVLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP LGTPDFRGKVFGVASQRNPDATTRAHEAKIDTTSGRFTPKLGSLEISTESSDFDQNQP TRFTPVGIGVDHEADFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSHLPSSG GRSNGILDCLVPQEWVQHFYQESAPSQSQVALVRYVNPDTGRVLFEAKLHKLGFMTIA KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ" CDS 6725..7489 /codon_start=1 /product="VP2" /protein_id="ASK12160.1" /translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA SFNHDKEMLNAQVEATKKLQADMIAIKQGALTAGGFSPTDAARGAINAPMTKVLDWNG TRYWAPGATSTTSMSGGFTHQTVHRSTPNFKTNQAPKSTPSSGSTVRSNSTQITSLSS HSSGSSRSSGSTVISSISSSNRTRDWVNQQNFNLEPHMPGSLRTAFVSPPSSTASSSG TVSTVPKNVLDSWTSAFNTRRQPLFAHLRRRGESNV" ORIGIN 1 gaagatggcg tctaacgacg ctaccgttgc cgttgcttgc aacaacaaca acgacaagga 61 aaaatcttca ggtgaaggct tattcacaaa tatgtcttcc accttaaaga aagccctcgg 121 ggctaggccc aaacagcctg ccccgagaga cgaaccacaa aagcccctaa gaccaccaac 181 tcccgagttg gtcaagaaga taccccctcc tccacctaat ggcgaagaag aagaagaacc 241 agtcattagg tacgaggtta agagtgggat ctctggcctg cccgagctta caacagtccc 301 ccaaccggac gtggccaaca cagcattcag tgttccacca ctgagcttga gagaaaacag 361 ggaggccaag gaaccgctaa caggggcaat attagagatg tgggatggag agatatacca 421 ctatggcctg tacgtggaga aaggcttagt gttgggtgtg cacaaaccac ctgcagccat 481 aagcatggca agagtggagc tggcgccgct gtcattgtac tggcgtgtgg tgtacactcc 541 ccaatacctc atctcccctg aaactctcag gaggctcaac ggagaggcgt tcccttacac 601 cgcctttgac aacaactgct atgccttttg ctgctgggtg ttagacctca atgactcatg 661 gcttagcagg aggatggtgc aaagaacaac gggcttcttc agaccttacc aagagtggaa 721 cagaaaaccc ctgcctacca tggatgactc caaaattaag aaggtagcaa atatattcct 781 atgttcattg tccacattat tcaccagacc cataaaagac ctcataggaa aaattaaacc 841 attaaacata ttgaatatcc tggcaacgtg tgactggacg tttgccggaa tagtggagtc 901 tctgatatta cttgctgaac tcttcggagt tttctggaca cccccagatg tgtctgctat 961 gatcgctccc ttactcgggg actacgagtt gcaagggcca gaagacctcg ccgttgaact 1021 cgtacctgta gtaatgggag ggattggttt ggtgttggga ttcaccaaag agaaaattgg 1081 caaaatgttg tcctcagcag catcaacact cagggcttgc aaagatcttg gtgcctatgg 1141 cttagagata ctcaaattgg tcatgaagtg gttcttccca aagaaagagg aggccaatga 1201 gctagccatg gtgagggcca tagaggatgc cgtactagat cttgaggcaa tagaaaataa 1261 ccacatgaca accctgttga aagacaaaga cagcttagca acatacatga aaacactgga 1321 catggaggag gagaaagcca gaaggttgtc cacaaaatct gcatcccctg acatagttgg 1381 gacaatcaac gccctgctgg ctcgaatagc agcggccagg tcattagtcc acagggccaa 1441 ggaagagcta tctagcagga taagaccagt agttgttatg atatctggca aaccaggaat 1501 aggcaaaact catctggcca gggaggtggc aagaaaggtg gcatccactc tcacagggga 1561 tcaaagagtc ggactcatac caaggaacgg tgtggaccat tgggatgcat acaaaggtga 1621 gagagtcgtg ctgtgggacg actatggcat gagtaacccc attcatgatg ctcttcgcat 1681 acaagaattg gctgatacgt gtccccttac cttaaattgt gacagaattg aaaataaggg 1741 aaaagttttt gacagtgaag tcataataat tacaacaaac cttgccaatc cagccccact 1801 tgattatgtc aactttgagg cctgttccag gagaattgat ttcctggtgt acgctgaggc 1861 accagaagta gaaaaggcaa aacgggactt tcctggtcag ccagatatgt ggaaggacgc 1921 cttcaagccg gacttttcac acatcaagct acagcttgca cctcagggcg gctttgacaa 1981 gaatggtaac accccacatg ggaaaggagt gatgaagacc ctcactaccg gttctctgat 2041 tgcccgtgca tcaggcctac tgcatgagag gatggatgaa tttgaactcc aaggtcccac 2101 aatcaccacc ttcaatttcg accggaacag aatcacagca ttcagacaat tggctgcaga 2161 aaacaagtat ggattggtgg ataccatgaa agttggcaat caactaaaag gagtgaaaac 2221 catggaagaa ctcaaacaag caatcaggaa tgtgaccatc aagaggtgcc ggatcatcta 2281 cggtggctcc acgtatgacc ttgaatctga tggcaagggc aaagttttgg tggaaaaggt 2341 caagaacacc tctgtacaga ccaacaacga gttggccggg gccctgcacc atctcaaaca 2401 tgcccgaatc aggtactatg tcaaatgtgt gcaagaagca gtctattcca tcatacaaat 2461 tgccggcgct gcatttgtca ccacgcgcat tgcacgccgc atgaacatac aagaactctg 2521 gtcgaagcca caattagatc aaaatgaatc agagactaag gaagaggccc ccaagtcaga 2581 agatgacgag ttcatcatat cttctaagga catcaaggag gaaggaaaga agggcaaaaa 2641 caaaactggc cgtggcaaga aacacactgc attttccagc aagggcttga gcgatgagga 2701 gtatgacgag tacaagagga taagagaaga gagaaatggg aagtactcta tagaggagta 2761 tcttcaagac agagacaagt actatgagga gctcgccatt gccaaggcca cggaagaaga 2821 cttctgtgaa gaggaggaga tcaaaatccg tcagagaatt ttccgtccca ccaggaaaca 2881 aagaaaggaa gagagggcca cattagggct agtaacaggt tcagaaatca gaaaaagaaa 2941 ccctgatgac ttcaaaccca aagggaagct gtgggccgat gacaacagaa gtgttgacta 3001 caatgagaaa ctggactttg aggccccccc aagcatatgg tctaggattg tgagctttgg 3061 ttctggctgg ggcttctggg tatcaccaag cctgttcata acatcaactc atgtaatccc 3121 cgcaggcata acagaagcat ttggagtccc catcaaacaa attcagatcc acaaatcagg 3181 tgaattttgc cgattcagat tcccaaaacc aattagacca gatgtgacag gaatgatctt 3241 ggaagaaggt gcgcctgaag gcaccgtggc aactgtgctc atcaaacgcc ccaccggaga 3301 gctcatgcct cttgcagcca gaatgggaac acacgcaacc atgaaaattc agggccgcat 3361 ggttggcgga cagatgggta tgttgctcac tggatcaaat gctaaaggaa tggatttggg 3421 aacaactcct ggtgactgtg gttgtcctta catctataaa aggggcaatg attatatagt 3481 cattggggtg cacactgcag cagcccgtgg tggaaacacc gtcatctgtg ccacacaggg 3541 aagtgagggt gaggcaactc ttgagggtgg agatgacaaa ggaacatact gtggggcacc 3601 cattctaggc cctgggggtg caccaaaatt gagcaccaaa accaaatttt ggagatcatc 3661 gaacacgccc cttccaccag ggacatatga acctgcctac ctcggtggcc gtgatccgcg 3721 tgttaagggt gggccctcct tgcagcaggt aatgagagac cagttgaagc cattcactga 3781 acccaggggc aaacctccaa gaccaagtgt attggaagca gccaaacaaa ccattattaa 3841 tgtcctcgaa caaaccctgg accctccaca aaaatggaca tacgcacagg cgtgtgcctc 3901 acttgacaaa accacctcca gcgggcatcc ccatcacgtc cgaaagaatg aattctggaa 3961 tggtgaaacc ttcactggta aattggcaga ccaagcatca aaagcaaacc taatgtttga 4021 ggaagggaaa cacatgacac cagtgtatac agcagcactc aaggacgagc tagtcaagac 4081 tgagaaaatc tatggaaaga tcaagaagag actgctctgg ggctctgact tgtccaccat 4141 gatccggtgc gctaggtcat ttggtgggct catggacgag atgaaggcac actgcatatc 4201 actcccagta cgagttggca tgaatatgaa tgaagatggc ccaataatat ttgagaaaca 4261 ttccagatac aaataccact atgatgcaga ctactctcgt tgggattcaa cacaacagag 4321 ggcagtacta gcggcagcct tggaaatcat ggttagattc tctgcagaac cacaattggc 4381 acaaatagtc gctgaggatc tgctggcccc tagtgtagta gatgtaggag actttaaaat 4441 cacaataaat gaagggctcc catctggtgt gccgtgcact tctcaatgga actccatcgc 4501 acactggctg ctaactctct gtgccttgtc tgaagtcacc aaactgtccc ctgacatcat 4561 acaagcaaat tccatgttct cattttacgg tgatgacgag attgtcagta ccgacataaa 4621 attggaccct gaacagttaa ccgccaaatt gaaggagtac ggcctgaaac caacccgccc 4681 agacaagacc gagggacccc tgatcatcag tgaagatttg aacggactca ctttcctccg 4741 aaggacggtg actcgtgacc cagctggctg gtttggaaaa ctggaccaaa gctcaatttt 4801 gaggcagatg tactggacta gaggaccaaa tcatgaagac cccagtgaga caatgatacc 4861 ccattctcaa agacccatac agctcatggc actgcttggt gaagcctctc ttcacggacc 4921 ctctttctac agtaaaatca gtaaattggt cataactgaa ctcaaagaag gtgggatgga 4981 cttttacgtg ccaagacagg aacccatgtt caggtggatg aggttttctg acttgagcac 5041 gtgggagggc gatcgcaatc tggctcccaa ttttgtgaat gaagatggcg tcgaatgacg 5101 ccgctccatc taatgatggt gccgccggcc tcgtcccaga gatcaacaat gaggcaatgg 5161 cgctagagcc agtggcgggt gcagcgatag cagcacccct cactggtcag caaaatataa 5221 ttgatccctg gattatgaat aattttgtgc aagcacctgg tggtgagttt acagtgtccc 5281 ccagaaattc ccctggtgaa gtccttctta atttggaact gggcccagaa ataaatccct 5341 atttggccca tcttgctaga atgtacaatg gttatgcagg tggatttgaa gtgcaggtgg 5401 tcctagctgg aaatgcgttt acagcaggaa agataatctt tgcagccatc ccccccaatt 5461 ttccaattga caatttaagt gcagcacaga ttacaatgtg cccacatgtg attgtggatg 5521 tcaggcagtt ggaaccagtc aacctcccga tgcctgacgt tcgcaacaac ttctttcatt 5581 ataaccaagg gtctgactcg aggttacgcc taattgcaat gctatacaca cctcttaggg 5641 caaacaattc tggggatgat gtttttactg tgtcttgtag agtgttaact agacctagtc 5701 ctgatttctc attcaatttc cttgtgccac ctactgtgga gtcaaagaca aaaccctttt 5761 ccctccctat cctgactatc tctgaaatgt ccaattctag gttcccagta ccaattgatt 5821 ccctacatac cagtcctact gagaatattg ttgttcagtg ccaaaatggg cgcgtcaccc 5881 ttgatggtga actgatgggc accacccaac tcttgcctag ccaaatctgt gctttcaggg 5941 gcgttctcac caggtcaaca agcagagcca gtgaccaggc cgatacagca acccctagat 6001 tgtttaatta ttattggcac atacaattgg ataatctaaa tggaacccct tatgatcctg 6061 cagaagacat accaggcccc ctagggacac cagatttccg tggcaaagtc tttggcgtgg 6121 ccagccagag aaatcctgat gccacgacta gggcgcatga ggcaaagata gacaccacat 6181 ctggccgctt caccccaaag ctaggctcat tagagatatc cactgaatct agtgattttg 6241 accaaaacca accgacaaga ttcaccccag ttggcattgg agttgaccat gaggcagact 6301 ttcaacaatg gaccctaccc gactatgctg gtcagttcac acacaacatg aacttagccc 6361 cagctgttgc tcccaacttc cctggtgagc agctcctttt cttccgctca catttgccat 6421 cttctggtgg gcgatccaac gggattctag actgcctggt tccccaagaa tgggtacagc 6481 acttctacca agagtcagcc ccctctcagt ctcaagtggc cctggttagg tatgttaatc 6541 ctgacactgg tagagtgtta tttgaggcca agctacacaa attaggtttc atgactatag 6601 ccaagaatgg tgattctcca ataactgtcc ctccaaatgg atactttagg tttgaatctt 6661 gggtgaaccc cttttacaca cttgccccta tgggaactgg gaatgggcgt agaaggattc 6721 aataatggct ggagctttta tagcaggatt ggctggtgac atgctcacaa atactgtagg 6781 atctttagtt aatgcaggag ctaatgctat taatcaaaca attgactttg aaaataataa 6841 atacttgcaa aatgcttctt ttaatcatga taaggagatg ttgaatgcac aagttgaggc 6901 aacaaagaag ttacaggctg acatgattgc tatcaaacaa ggggctttga ccgctggcgg 6961 cttctcccct actgatgcag cccgtggggc aattaatgcc cccatgacaa aagtcctaga 7021 ttggaatgga acgagatact gggcaccagg tgccacctcc acaacctcga tgtcgggtgg 7081 ctttacacat caaactgtgc acagatccac accaaacttt aaaacgaacc aggcccccaa 7141 atccacaccc agcagtgggt ctacagtgag gtcaaactca acccaaatca ctagcctgag 7201 ctcacactcg tccgggtcgt ctcgatccag cgggtctaca gtcatcagct caatatcatc 7261 ctctaacagg actagggact gggtcaacca acaaaatttt aatttggaac cacacatgcc 7321 tggatctctt aggacagctt ttgtctctcc accatctagt acagcctcta gctcaggcac 7381 agtctcaact gtgcccaaaa atgttttgga ctcctggaca tctgcgttca acacgcgcag 7441 acagccgcta tttgcacacc ttcgcagaag gggggagtca aatgtttagt gaaaagatta 7501 ttttaaattt ggtttaaatt aggtttaatt tggaatcttt taaaaaaaa //